@quiltdata/benchling-webhook 0.6.3-20251104T182406Z → 0.7.2-20251106T003353Z

package/dist/scripts/infer-quilt-config.js

@@ -1,13 +1,15 @@
-#!/usr/bin/env node
+#!/usr/bin/env ts-node
 "use strict";
 /**
- * Quilt Catalog Auto-Inference
+ * Quilt Catalog Auto-Inference (v0.7.0)
  *
  * Automatically infers Quilt catalog configuration from:
  * 1. quilt3 CLI command (`quilt3 config`)
  * 2. AWS CloudFormation stack inspection
  * 3. Interactive catalog selection (if multiple catalogs available)
  *
+ * Returns configuration in v0.7.0 ProfileConfig format.
+ *
  * @module scripts/infer-quilt-config
  */
 var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
@@ -45,7 +47,6 @@ var __importStar = (this && this.__importStar) || (function () {
 })();
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.inferQuiltConfig = inferQuiltConfig;
-exports.inferenceResultToDerivedConfig = inferenceResultToDerivedConfig;
 const child_process_1 = require("child_process");
 const readline = __importStar(require("readline"));
 const client_cloudformation_1 = require("@aws-sdk/client-cloudformation");
@@ -57,9 +58,11 @@ const client_cloudformation_1 = require("@aws-sdk/client-cloudformation");
 function getQuilt3Catalog() {
     try {
         const output = (0, child_process_1.execSync)("quilt3 config", { encoding: "utf-8", stdio: ["pipe", "pipe", "ignore"] });
-        const catalogUrl = output.trim();
+        let catalogUrl = output.trim();
         if (catalogUrl && catalogUrl.startsWith("http")) {
             console.log(`Found quilt3 CLI configuration: ${catalogUrl}`);
+            // Strip protocol and trailing slash, store only domain
+            catalogUrl = catalogUrl.replace(/^https?:\/\//, "").replace(/\/$/, "");
             return { catalogUrl };
         }
         return null;
@@ -72,15 +75,14 @@ function getQuilt3Catalog() {
 /**
  * Finds Quilt CloudFormation stacks in AWS account
  *
- * @param region - AWS region to search (defaults to us-east-1)
+ * @param region - AWS region to search
  * @param profile - AWS profile to use
  * @returns Array of Quilt stack information
  */
-async function findQuiltStacks(region = "us-east-1", profile) {
+async function findQuiltStacks(region, profile) {
     try {
         const clientConfig = { region };
         if (profile) {
-            // Load AWS profile credentials
             const { fromIni } = await Promise.resolve().then(() => __importStar(require("@aws-sdk/credential-providers")));
             clientConfig.credentials = fromIni({ profile });
         }
@@ -118,7 +120,8 @@ async function findQuiltStacks(region = "us-east-1", profile) {
                     const key = output.OutputKey || "";
                     const value = output.OutputValue || "";
                     if (key === "QuiltWebHost") {
-                        stackInfo.catalogUrl = value;
+                        // Strip protocol and trailing slash, store only domain
+                        stackInfo.catalogUrl = value.replace(/^https?:\/\//, "").replace(/\/$/, "");
                     }
                     else if (key.includes("ucket")) {
                         stackInfo.bucket = value;
@@ -180,46 +183,58 @@ async function promptCatalogSelection(options) {
  * 2. CloudFormation stack inspection
  * 3. Interactive selection if multiple options
  *
+ * Returns configuration in v0.7.0 ProfileConfig.quilt format.
+ *
  * @param options - Inference options
- * @returns Inferred configuration
+ * @returns Quilt configuration object
+ *
+ * @example
+ * ```typescript
+ * const quiltConfig = await inferQuiltConfig({
+ *   region: "us-east-1",
+ *   profile: "default",
+ *   interactive: true
+ * });
+ * console.log(quiltConfig.stackArn);
+ * ```
  */
-async function inferQuiltConfig(options) {
+async function inferQuiltConfig(options = {}) {
     const { region = "us-east-1", profile, interactive = true } = options;
     const result = {
-        source: "none",
+        region,
     };
     // Step 1: Try quilt3 CLI command
     console.log("Checking quilt3 CLI configuration...");
     const quilt3Config = getQuilt3Catalog();
     if (quilt3Config?.catalogUrl) {
-        result.catalogUrl = quilt3Config.catalogUrl;
-        result.source = "quilt3-cli";
+        result.catalog = quilt3Config.catalogUrl;
+        console.log(`  ✓ Found catalog URL from quilt3: ${result.catalog}`);
     }
     else {
-        console.log("No quilt3 CLI configuration found.");
+        console.log("  No quilt3 CLI configuration found.");
     }
     // Step 2: Search for CloudFormation stacks
     console.log("\nSearching for Quilt CloudFormation stacks...");
     const stacks = await findQuiltStacks(region, profile);
     if (stacks.length === 0) {
-        console.log("No Quilt CloudFormation stacks found.");
+        console.log("  No Quilt CloudFormation stacks found.");
+        if (!result.catalog) {
+            throw new Error("Unable to infer Quilt configuration. Please run 'quilt3 config <catalog-url>' or provide stack ARN manually.");
+        }
         return result;
     }
-    console.log(`Found ${stacks.length} Quilt stack(s):\n`);
+    console.log(`  Found ${stacks.length} Quilt stack(s)\n`);
     let selectedStack;
     // If we have a catalog URL from quilt3, try to find matching stack
-    if (result.catalogUrl && stacks.length > 1) {
-        // Normalize URLs for comparison (remove protocol and trailing slashes)
-        const normalizeUrl = (url) => url.replace(/^https?:\/\//, "").replace(/\/$/, "");
-        const targetUrl = normalizeUrl(result.catalogUrl);
-        const matchingStack = stacks.find((s) => s.catalogUrl && normalizeUrl(s.catalogUrl) === targetUrl);
+    if (result.catalog && stacks.length > 1) {
+        // Both result.catalog and stack catalogUrl are now bare domains, so compare directly
+        const matchingStack = stacks.find((s) => s.catalogUrl === result.catalog);
         if (matchingStack) {
             selectedStack = matchingStack;
-            console.log(`Auto-selected stack matching catalog URL: ${selectedStack.stackName}`);
+            console.log(`  Auto-selected stack matching catalog URL: ${selectedStack.stackName}`);
         }
         else {
-            // No match found, prompt user
-            console.log(`No stack found matching catalog URL: ${result.catalogUrl}`);
+            console.log(`  No stack found matching catalog URL: ${result.catalog}`);
             if (interactive) {
                 const options = stacks.map((s) => `${s.stackName} (${s.region})`);
                 const selectedIndex = await promptCatalogSelection(options);
@@ -228,13 +243,13 @@ async function inferQuiltConfig(options) {
             }
             else {
                 selectedStack = stacks[0];
-                console.log(`Using first stack: ${selectedStack.stackName}`);
+                console.log(`  Using first stack: ${selectedStack.stackName}`);
             }
         }
     }
     else if (stacks.length === 1) {
         selectedStack = stacks[0];
-        console.log(`Using stack: ${selectedStack.stackName}`);
+        console.log(`  Using stack: ${selectedStack.stackName}`);
     }
     else if (interactive) {
         const options = stacks.map((s) => `${s.stackName} (${s.region})`);
@@ -244,65 +259,20 @@ async function inferQuiltConfig(options) {
     }
     else {
         selectedStack = stacks[0];
-        console.log(`Using first stack: ${selectedStack.stackName}`);
+        console.log(`  Using first stack: ${selectedStack.stackName}`);
     }
     // Populate result from selected stack
-    if (selectedStack.stackArn) {
-        result.quiltStackArn = selectedStack.stackArn;
-    }
-    if (selectedStack.bucket) {
-        result.quiltUserBucket = selectedStack.bucket;
-    }
-    if (selectedStack.queueArn) {
-        result.queueArn = selectedStack.queueArn;
-    }
-    if (selectedStack.catalogUrl && !result.catalogUrl) {
-        result.catalogUrl = selectedStack.catalogUrl;
-    }
-    if (selectedStack.region) {
-        result.quiltRegion = selectedStack.region;
-    }
-    if (result.source === "quilt3-cli") {
-        result.source = "quilt3-cli+cloudformation";
-    }
-    else {
-        result.source = "cloudformation";
+    result.stackArn = selectedStack.stackArn;
+    result.bucket = selectedStack.bucket;
+    result.database = selectedStack.database || "quilt_catalog";
+    result.queueArn = selectedStack.queueArn;
+    result.region = selectedStack.region;
+    if (selectedStack.catalogUrl) {
+        result.catalog = selectedStack.catalogUrl;
     }
+    console.log("\n✓ Quilt configuration inferred successfully\n");
     return result;
 }
-/**
- * Converts inference result to DerivedConfig
- *
- * @param result - Inference result
- * @returns DerivedConfig object
- */
-function inferenceResultToDerivedConfig(result) {
-    const config = {
-        _metadata: {
-            inferredAt: new Date().toISOString(),
-            inferredFrom: result.source,
-            source: "infer-quilt-config",
-            version: "0.6.0",
-        },
-    };
-    if (result.catalogUrl) {
-        config.catalogUrl = result.catalogUrl;
-        config.quiltCatalog = result.catalogUrl;
-    }
-    if (result.quiltUserBucket) {
-        config.quiltUserBucket = result.quiltUserBucket;
-    }
-    if (result.quiltStackArn) {
-        config.quiltStackArn = result.quiltStackArn;
-    }
-    if (result.quiltRegion) {
-        config.quiltRegion = result.quiltRegion;
-    }
-    if (result.queueArn) {
-        config.queueArn = result.queueArn;
-    }
-    return config;
-}
 /**
  * Main execution for CLI usage
  */
@@ -325,23 +295,15 @@ async function main() {
             options.interactive = false;
         }
     }
-    console.log("Quilt Catalog Auto-Inference\n");
+    console.log("Quilt Catalog Auto-Inference (v0.7.0)\n");
     const result = await inferQuiltConfig(options);
-    console.log("\n=== Inference Results ===");
-    console.log(`Source: ${result.source}`);
-    if (result.catalogUrl)
-        console.log(`Catalog URL: ${result.catalogUrl}`);
-    if (result.quiltUserBucket)
-        console.log(`User Bucket: ${result.quiltUserBucket}`);
-    if (result.quiltStackArn)
-        console.log(`Stack ARN: ${result.quiltStackArn}`);
-    if (result.quiltRegion)
-        console.log(`Region: ${result.quiltRegion}`);
-    if (result.queueArn)
-        console.log(`Queue ARN: ${result.queueArn}`);
-    const derivedConfig = inferenceResultToDerivedConfig(result);
-    console.log("\n=== Derived Configuration ===");
-    console.log(JSON.stringify(derivedConfig, null, 4));
+    console.log("=== Inference Results ===");
+    console.log(`Stack ARN: ${result.stackArn || "Not found"}`);
+    console.log(`Catalog URL: ${result.catalog || "Not found"}`);
+    console.log(`Bucket: ${result.bucket || "Not found"}`);
+    console.log(`Database: ${result.database || "Not found"}`);
+    console.log(`Queue ARN: ${result.queueArn || "Not found"}`);
+    console.log(`Region: ${result.region || "Not found"}`);
 }
 // Run main if executed directly
 if (require.main === module) {

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package/dist/scripts/send-event.d.ts.map

@@ -0,0 +1 @@
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package/dist/scripts/send-event.js.map

@@ -0,0 +1 @@
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package/dist/{bin → scripts}/version.d.ts

@@ -1,6 +1,6 @@
 #!/usr/bin/env node
 /**
- * Version management script - bumps version numbers across all files
+ * Version management script - bumps version numbers and creates release tags
  *
  * Usage:
  *   node bin/version.ts          # Show all three version files
@@ -8,6 +8,8 @@
  *   node bin/version.ts minor    # 0.4.7 -> 0.5.0
  *   node bin/version.ts major    # 0.4.7 -> 1.0.0
  *   node bin/version.ts sync     # Force TOML and YAML to match JSON version
+ *   node bin/version.ts tag      # Create and push production release tag
+ *   node bin/version.ts tag dev  # Create and push dev release tag
  */
 export {};
 //# sourceMappingURL=version.d.ts.map

package/dist/scripts/version.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"version.d.ts","sourceRoot":"","sources":["../../scripts/version.ts"],"names":[],"mappings":";AAEA;;;;;;;;;;;GAWG"}

package/dist/{bin → scripts}/version.js

@@ -1,7 +1,7 @@
 #!/usr/bin/env node
 "use strict";
 /**
- * Version management script - bumps version numbers across all files
+ * Version management script - bumps version numbers and creates release tags
  *
  * Usage:
  *   node bin/version.ts          # Show all three version files
@@ -9,6 +9,8 @@
  *   node bin/version.ts minor    # 0.4.7 -> 0.5.0
  *   node bin/version.ts major    # 0.4.7 -> 1.0.0
  *   node bin/version.ts sync     # Force TOML and YAML to match JSON version
+ *   node bin/version.ts tag      # Create and push production release tag
+ *   node bin/version.ts tag dev  # Create and push dev release tag
  */
 var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
     if (k2 === undefined) k2 = k;
@@ -112,6 +114,60 @@ function updateAppManifestVersion(newVersion) {
     fs.writeFileSync(appManifestPath, content);
     console.log(`✅ Updated docker/app-manifest.yaml to version ${newVersion}`);
 }
+function createGitTag(version, isDev, noPush) {
+    let tagName = `v${version}`;
+    // For dev releases, append timestamp to make unique
+    if (isDev) {
+        const timestamp = new Date().toISOString().replace(/[-:]/g, "").replace(/\.\d+Z$/, "Z");
+        tagName = `v${version}-${timestamp}`;
+    }
+    const tagType = isDev ? "pre-release (dev)" : "release";
+    // Check if tag already exists
+    try {
+        (0, child_process_1.execSync)(`git rev-parse ${tagName}`, { stdio: "ignore" });
+        console.error(`❌ Tag ${tagName} already exists`);
+        process.exit(1);
+    }
+    catch {
+        // Tag doesn't exist, continue
+    }
+    // Create tag
+    const message = isDev
+        ? `Development ${tagType} ${tagName}\n\nThis is a pre-release for testing purposes.`
+        : `Release ${tagName}`;
+    (0, child_process_1.execSync)(`git tag -a ${tagName} -m "${message}"`, { stdio: "inherit" });
+    console.log(`✅ Created git tag ${tagName}`);
+    // Push tag unless --no-push is specified
+    if (!noPush) {
+        console.log("");
+        console.log(`Pushing tag ${tagName} to origin...`);
+        try {
+            (0, child_process_1.execSync)(`git push origin ${tagName}`, { stdio: "inherit" });
+            console.log(`✅ Pushed tag ${tagName} to origin`);
+            console.log("");
+            console.log("CI/CD pipeline will now:");
+            console.log("  - Run all tests");
+            console.log("  - Build and push Docker image to ECR");
+            console.log("  - Create GitHub release");
+            if (!isDev) {
+                console.log("  - Publish to NPM (production releases only)");
+            }
+            console.log("  - Publish to GitHub Packages");
+            console.log("");
+            console.log("Monitor progress at: https://github.com/quiltdata/benchling-webhook/actions");
+        }
+        catch {
+            console.error(`❌ Failed to push tag ${tagName}`);
+            console.error("You can manually push with: git push origin " + tagName);
+            process.exit(1);
+        }
+    }
+    else {
+        console.log("");
+        console.log("Tag created but not pushed (--no-push specified)");
+        console.log(`To push later: git push origin ${tagName}`);
+    }
+}
 function main() {
     const args = process.argv.slice(2);
     // No args: display all three versions
@@ -135,21 +191,32 @@ function main() {
     if (args.includes("--help") || args.includes("-h")) {
         console.log("Current version:", pkg.version);
         console.log("");
-        console.log("Usage: node bin/version.ts [command]");
+        console.log("Usage: node bin/version.ts [command] [options]");
         console.log("");
-        console.log("Commands:");
+        console.log("Version Management Commands:");
         console.log("  (no args)  - Display all three version files");
         console.log("  major      - Bump major version (1.0.0 -> 2.0.0)");
         console.log("  minor      - Bump minor version (0.4.7 -> 0.5.0)");
         console.log("  patch      - Bump patch version (0.4.7 -> 0.4.8)");
         console.log("  sync       - Force TOML and YAML to match JSON version");
         console.log("");
-        console.log("This script updates version numbers in:");
+        console.log("Release Tagging Commands:");
+        console.log("  tag        - Create and push production release tag");
+        console.log("  tag dev    - Create and push dev release tag with timestamp");
+        console.log("");
+        console.log("Options:");
+        console.log("  --no-push  - Create tag but do not push to origin (tag command only)");
+        console.log("");
+        console.log("This script manages version numbers in:");
         console.log("  - package.json");
         console.log("  - docker/pyproject.toml");
         console.log("  - docker/app-manifest.yaml");
         console.log("");
-        console.log("To create a release tag, use: npm run release or npm run release:dev");
+        console.log("Examples:");
+        console.log("  npm run version              # Show versions");
+        console.log("  npm run version patch        # Bump patch version");
+        console.log("  npm run version:tag          # Create production release tag");
+        console.log("  npm run version:tag:dev      # Create dev release tag");
         process.exit(0);
     }
     const bumpType = args[0];
@@ -171,7 +238,7 @@ function main() {
             try {
                 (0, child_process_1.execSync)("git diff --quiet docker/pyproject.toml docker/app-manifest.yaml", { stdio: "ignore" });
             }
-            catch (e) {
+            catch {
                 hasChanges = true;
             }
             if (hasChanges) {
@@ -190,11 +257,30 @@ function main() {
         }
         process.exit(0);
     }
-    // Check for uncommitted changes
+    // Tag command - create and push git tags
+    if (bumpType === "tag") {
+        // Check for uncommitted changes
+        try {
+            (0, child_process_1.execSync)("git diff-index --quiet HEAD --", { stdio: "ignore" });
+        }
+        catch {
+            console.error("❌ You have uncommitted changes");
+            console.error("   Commit or stash your changes before creating a release");
+            process.exit(1);
+        }
+        const isDev = args.includes("dev");
+        const noPush = args.includes("--no-push");
+        const version = pkg.version;
+        console.log(`Creating ${isDev ? "dev" : "production"} release from version: ${version}`);
+        console.log("");
+        createGitTag(version, isDev, noPush);
+        process.exit(0);
+    }
+    // Check for uncommitted changes (for version bump commands)
     try {
         (0, child_process_1.execSync)("git diff-index --quiet HEAD --", { stdio: "ignore" });
     }
-    catch (e) {
+    catch {
         console.error("❌ You have uncommitted changes");
         console.error("   Commit or stash your changes before bumping version");
         process.exit(1);
@@ -215,7 +301,7 @@ function main() {
         console.log("");
         console.log("Next steps:");
         console.log("  1. Push changes: git push");
-        console.log("  2. Create release: npm run release (or npm run release:dev for dev release)");
+        console.log("  2. Create release tag: npm run version:tag (or npm run version:tag:dev for dev release)");
     }
     catch (error) {
         const message = error instanceof Error ? error.message : String(error);

package/dist/scripts/version.js.map

@@ -0,0 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@quiltdata/benchling-webhook",
-  "version": "0.6.3-20251104T182406Z",
+  "version": "0.7.2-20251106T003353Z",
   "description": "AWS CDK deployment for Benchling webhook processing using Fargate - Deploy directly with npx",
   "main": "dist/lib/index.js",
   "types": "dist/lib/index.d.ts",
@@ -18,18 +18,20 @@
     "build:clean": "rm -rf cdk.out dist */{*.js,*.d.ts}",
     "build:synth": "npx cdk synth",
     "build:typecheck": "tsc --noEmit",
-    "deploy:dev": "npm run test && ts-node bin/dev-deploy.ts",
-    "deploy:prod": "ts-node bin/cli.ts deploy",
-    "deploy:logs": "ts-node bin/check-logs.ts",
-    "deploy:notes": "bash bin/release-notes.sh",
+    "deploy:dev": "ts-node bin/cli.ts deploy --stage dev --profile dev",
+    "deploy:prod": "ts-node bin/cli.ts deploy --stage prod --profile default",
+    "deploy:logs": "ts-node scripts/check-logs.ts",
+    "deploy:notes": "bash scripts/release-notes.sh",
     "lint": "eslint . --ext .ts --fix && make -C docker lint",
     "postbuild": "chmod +x dist/bin/cli.js",
     "prebuild": "rm -rf dist",
     "prepublishOnly": "npm run build",
-    "setup": "ts-node scripts/install-wizard.ts",
-    "setup:health": "ts-node scripts/config-health-check.ts",
-    "setup:infer": "ts-node scripts/infer-quilt-config.ts",
-    "setup:sync-secrets": "ts-node scripts/sync-secrets.ts",
+    "setup": "ts-node bin/cli.ts",
+    "setup:dev": "ts-node bin/cli.ts --profile dev",
+    "setup:health": "ts-node bin/cli.ts health-check",
+    "setup:infer": "ts-node bin/commands/infer-quilt-config.ts",
+    "setup:profile": "ts-node bin/cli.ts setup-profile",
+    "setup:sync-secrets": "ts-node bin/commands/sync-secrets.ts",
     "test": "npm run build:typecheck && npm run test:ts && npm run test:python",
     "test:ci": "npm run build:typecheck && npm run test:ts",
     "test:dev": "make -C docker test-deployed-dev",
@@ -37,9 +39,9 @@
     "test:prod": "make -C docker test-deployed-prod",
     "test:python": "make -C docker test-unit",
     "test:ts": "cross-env NODE_ENV=test jest --maxWorkers=50%",
-    "version": "ts-node bin/version.ts",
-    "version:tag": "ts-node bin/release.ts",
-    "version:tag:dev": "ts-node bin/release.ts dev"
+    "version": "ts-node scripts/version.ts",
+    "version:tag": "ts-node scripts/version.ts tag",
+    "version:tag:dev": "ts-node scripts/version.ts tag dev"
   },
   "keywords": [
     "benchling",
@@ -88,7 +90,8 @@
     "@types/lodash.merge": "^4.6.9",
     "adm-zip": "^0.5.10",
     "ajv": "^8.17.1",
-    "aws-cdk-lib": "2.221.1",
+    "ajv-formats": "^3.0.1",
+    "aws-cdk-lib": "2.222.0",
     "aws-sdk": "^2.1574.0",
     "boxen": "^8.0.0",
     "chalk": "^5.0.0",

package/dist/bin/check-logs.d.ts

@@ -1,7 +0,0 @@
-#!/usr/bin/env node
-/**
- * Check CloudWatch logs for the deployed Benchling webhook ECS service
- * Uses CloudFormation stack outputs to find the correct log group
- */
-import "dotenv/config";
-//# sourceMappingURL=check-logs.d.ts.map

package/dist/bin/check-logs.d.ts.map

@@ -1 +0,0 @@
-{"version":3,"file":"check-logs.d.ts","sourceRoot":"","sources":["../../bin/check-logs.ts"],"names":[],"mappings":";AACA;;;GAGG;AAEH,OAAO,eAAe,CAAC"}

package/dist/bin/check-logs.js.map

@@ -1 +0,0 @@
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